Evidence map›Paper›PMID 40210524›Full record

ReviewJournal of molecular biology2025

Are Bacterial Processes Dependent on Global Ribosome Pausing Affected by tRNA Modification Defects?

Valérie de Crécy-Lagard, Zeynep Baharoglu, Yifeng Yuan, Grégory Boël, Jill Babor, Jo Marie Bacusmo, Peter C Dedon, Peiying Ho, Katherine R Hummels, Daniel Kearns

Abstract readReview
In one paragraph

Review in Journal of molecular biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed.

  1. Compendium of RNA modifications for bacterial stress adaptation.Microbiology and molecular biology reviews : MMBR · 2026
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors.

Valérie de Crécy-LagardDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA; Genetics Institute, University of Florida, Gainesville, FL 32611, USA. Electronic address: vcrecy@ufl.edu.
Zeynep BaharogluInstitut Pasteur, Université Paris Cité, Epitranscriptomic and Translational Responses to Anti-bacterial Stress, 75015 Paris, France; Expression Génétique Microbienne, CNRS, Université Paris Cité, Institut de Biologie Physico-Chimique, F-75005 Paris, France. Electronic address: zeynep.baharoglu@pasteur.fr.
Yifeng YuanDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA. Electronic address: yuanyifeng@ufl.edu.
Grégory BoëlExpression Génétique Microbienne, CNRS, Université Paris Cité, Institut de Biologie Physico-Chimique, F-75005 Paris, France. Electronic address: boel@ibpc.fr.
Jill BaborDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA. Electronic address: Baborj1@mskcc.org.
Jo Marie BacusmoDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA. Electronic address: jmbacusbo@ufl.edu.
Peter C DedonSingapore-MIT Alliance for Research and Technology, Antimicrobial Resistance IRG, Singapore 138602 Singapore; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address: pcdedon@mit.edu.
Peiying HoSingapore-MIT Alliance for Research and Technology, Antimicrobial Resistance IRG, Singapore 138602 Singapore.
Katherine R HummelsDepartment of Biology, Indiana University, Bloomington, IN 47405, USA. Electronic address: Katherine.Hummels@uga.edu.
Daniel KearnsDepartment of Biology, Indiana University, Bloomington, IN 47405, USA. Electronic address: dbkearns@indiana.edu.

Funding

Synthesis and function of Queuosine in BacteriaR01GM070641 · NIGMS · UNIVERSITY OF FLORIDA · PI DE CRECY-LAGARD, VALERIE A · 2006 to 2023
$5.3M
Swarming motility and the regulation of flagellar biosynthesis in Bacillus subtilisR35GM131783 · NIGMS · TRUSTEES OF INDIANA UNIVERSITY · PI Daniel B Kearns · 2019 to 2026
$3.9M
NIGMS NIH HHS R01 GM070641NIGMS NIH HHS R35 GM131783
6 · The paper itself

Abstract

By integrating a literature review with transcriptomic, proteomic, and phenotypic data from two model bacteria, Escherichia coli and Vibrio cholerae, we put forward the hypothesis that defects in tRNA modification broadly impact processes that are evolutionarily tuned to be sensitive to translation speed. These include the translation of regulatory proteins associated with motility, iron homeostasis, and leader peptide-driven attenuation mechanisms. Some of these translation speed-dependent processes are influenced by the absence of a single modification, while others are affected by the absence of multiple modifications. Although further experiments are needed to clarify the mechanisms involved in each case, this work provides a foundational framework to guide future research.

Indexed as

Escherichia coliRibosomesRNA, TransferVibrio choleraeBacterial Physiological PhenomenaBacterial ProteinsGene Expression Regulation, BacterialGenome, BacterialHomeostasisIronMutationProteomeTranscriptomeBacterial ProteinsIronProteomeRNA, TransferEscherichia coliiron homeostasisleader peptidemotilitytRNA modification

Identifiers

PMID40210524
PMCPMC12162200

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.